pakiessling

bento.io.prep KeyError: 'spatialdata_attrs'

1

Hi I am trying to follow the tutorial but I receive the following error with my data: ``` sdata = bt.io.prep(sdata) --------------------------------------------------------------------------- KeyError Traceback (most recent call last) Cell In[3],...

Plotting cropped Spatialdata leads to polygons protruding the viewport

2

Hi, making an issue as @giovp suggested. I ran into an issue trying to visualize a specific area of my tissue.  Cropping Spatialdata to a specific area by polygon...

[Bug] Morphology.ome.tif low resolution after running Sopa on Xenium Sample

3

Hi Quentin, I noticed something strange with the Xenium run I am working on. After running sopa the image of the multimodal staining looks very bad compared to the Xenium...

Hi Quentin, we talked a little bit about this in Munich. I think this might be more noticeble in our samples as we are working with big cells:  You...

Hi Quentin, I saw in #87 that you were making the choice to not update the points dataframe with the newly assigned cell id. I can see the value in...

Hi, I am running into an error while trying to construct an object from Seurat. (Trying to work around anndataR currently not working correctly with Seurat v5 objects) ``` matrix